메뉴 건너뛰기




Volumn 24, Issue 4, 2009, Pages 503-516

Robust tests in genome-wide scans under incomplete linkage disequilibrium

Author keywords

Efficiency robustness; Genetic models; Genome wide association studies; Incomplete LD model; Linkage disequilibrium; Ranking and selection

Indexed keywords


EID: 77955140509     PISSN: 08834237     EISSN: None     Source Type: Journal    
DOI: 10.1214/09-STS314     Document Type: Article
Times cited : (16)

References (46)
  • 2
    • 33748804424 scopus 로고    scopus 로고
    • A tutorial on statistical methods for population association studies
    • BALDING, D. J. (2006). A tutorial on statistical methods for population association studies. Nat. Rev. Genet. 7 781-791.
    • (2006) Nat. Rev. Genet. , vol.7 , pp. 781-791
    • Balding, D.J.1
  • 3
    • 36749079336 scopus 로고    scopus 로고
    • So many correlated tests, so little time! Rapid adjustment of P values for multiple correlated tests
    • CONNEELY, K.N. and BOEHNKE, M. (2007). So many correlated tests, so little time! Rapid adjustment of P values for multiple correlated tests. Am.J.Hum.Genet.81 1158-1168.
    • (2007) Am. J. Hum. Genet. 81 , pp. 1158-1168
    • Conneely, K.N.1    Boehnke, M.2
  • 4
    • 0017755296 scopus 로고
    • Hypothesis testing when a nuisance parameter is present only under the alternative
    • MR0501523
    • DAVIES, R. B. (1977). Hypothesis testing when a nuisance parameter is present only under the alternative. Biometrika 64 247-254. MR0501523
    • (1977) Biometrika , vol.64 , pp. 247-254
    • Davies, R.B.1
  • 5
    • 24944532669 scopus 로고
    • Hypothesis-testing when a nuisance parameter is present only under the alternative
    • MR0885917
    • DAVIE S, R. B. (1987). Hypothesis-testing when a nuisance parameter is present only under the alternative. Biometrika 74 33-43. MR0885917
    • (1987) Biometrika , vol.74 , pp. 33-43
    • Davies, R.B.1
  • 7
    • 0036364293 scopus 로고    scopus 로고
    • Trend tests for case-control studies of genetic markers: Power, sample size and robustness
    • (Erratum 68. (2009) 220)
    • FREIDLIN, B., ZHENG, G., LI, Z. and GASTWIRTH, J. L. (2002). Trend tests for case-control studies of genetic markers: Power, sample size and robustness. Hum. Hered. 53 146-152 (Erratum 68 (2009) 220).
    • (2002) Hum. Hered. , vol.53 , pp. 146-152
    • Freidlin, B.1    Zheng, G.2    Li, Z.3    Gastwirth, J.L.4
  • 8
    • 41149141319 scopus 로고    scopus 로고
    • Probability of detecting disease-associated single nucleotide polymorphisms in case-control genome-wide association studies
    • GAIL.M.H., PFEIFFER.R.M., WHEELER.W. and PEE, D. (2008). Probability of detecting disease-associated single nucleotide polymorphisms in case-control genome-wide association studies. Biostatistics 9 201-215.
    • (2008) Biostatistics , vol.9 , pp. 201-215
    • Gail, M.H.1    Pfeiffer, R.M.2    Wheeler, W.3    Pee, D.4
  • 9
    • 0000222316 scopus 로고
    • On robust procedures
    • MR0205397
    • GASTWIRTH, J. L. (1966). On robust procedures. J. Amer. Statist. Assoc. 61 929-948. MR0205397
    • (1966) J. Amer. Statist. Assoc. , vol.61 , pp. 929-948
    • Gastwirth, J.L.1
  • 10
    • 0001429974 scopus 로고
    • The use of maximin efficiency robust tests in combining contingency tables and survival analysis
    • MR0792737
    • GASTWIRTH, J. L. (1985). The use of maximin efficiency robust tests in combining contingency tables and survival analysis. J. Amer. Statist. Assoc. 80 380-384. MR0792737
    • (1985) J. Amer. Statist. Assoc. , vol.80 , pp. 380-384
    • Gastwirth, J.L.1
  • 12
    • 42149182427 scopus 로고    scopus 로고
    • A note on allelic tests in case-control association studies
    • GUEDJ, M., NUEL, G. and PRUM, B. (2008). A note on allelic tests in case-control association studies. Ann. Hum. Genet. 72 407-409.
    • (2008) Ann. Hum. Genet. , vol.72 , pp. 407-409
    • Guedj, M.1    Nuel, G.2    Prum, B.3
  • 13
    • 33645730032 scopus 로고    scopus 로고
    • Design and analysis of genetic association studies to finely map a locus identified by linkage analysis: Sample size and power calculations
    • HANSON, R.L., LOOKER, H.C., MA, L., MULLER, Y.L., BAIER, L.J. and KNOWLER, W. C. (2006). Design and analysis of genetic association studies to finely map a locus identified by linkage analysis: Sample size and power calculations. Ann. Hum. Genet. 70 332-349.
    • (2006) Ann. Hum. Genet. , vol.70 , pp. 332-349
    • Hanson, R.L.1    Looker, H.C.2    Ma, L.3    Muller, Y.L.4    Baier, L.J.5    Knowler, W.C.6
  • 14
    • 0042881041 scopus 로고    scopus 로고
    • Mathematical multi-locus approaches to localizing complex human trait genes
    • HOH, J. and OTT, J. (2003). Mathematical multi-locus approaches to localizing complex human trait genes. Nat. Rev. Genet. 4 701-709.
    • (2003) Nat. Rev. Genet. , vol.4 , pp. 701-709
    • Hoh, J.1    Ott, J.2
  • 15
    • 70450255050 scopus 로고    scopus 로고
    • A robust genome-wide scan statistic of the Wellcome Trust Case-Control Consortium
    • JOO, J., KWAK, M., AHN, K. and ZHENG, G. (2009). A robust genome-wide scan statistic of the Wellcome Trust Case-Control Consortium. Biometrics 65 1115-1122.
    • (2009) Biometrics , vol.65 , pp. 1115-1122
    • Joo, J.1    Kwak, M.2    Ahn, K.3    Zheng, G.4
  • 17
    • 77955144299 scopus 로고    scopus 로고
    • Replication in genome-wide association studies
    • KRAFT, P., ZEGGINI, E. and IOANNIDIS, J. P. A. (2009). Replication in genome-wide association studies. Statist. Sci. 24 561-573.
    • (2009) Statist. Sci. , vol.24 , pp. 561-573
    • Kraft, P.1    Zeggini, E.2    Ioannidis, J.P.A.3
  • 18
    • 34247340876 scopus 로고    scopus 로고
    • Genetic model testing and statistical power in population-based association studies of quantitative traits
    • LETTRE, G., LANGE, C. and HIRSCHHORN, J. N. (2007). Genetic model testing and statistical power in population-based association studies of quantitative traits. Genet. Epidemiol. 31 358-362.
    • (2007) Genet. Epidemiol. , vol.31 , pp. 358-362
    • Lettre, G.1    Lange, C.2    Hirschhorn, J.N.3
  • 19
    • 0002907949 scopus 로고
    • The interaction of selection and linkage. I. General considerations; heterotic models
    • LEWONTIN, R. C. (1964). The interaction of selection and linkage. I. General considerations; heterotic models. Genetics 49 49-67.
    • (1964) Genetics , vol.49 , pp. 49-67
    • Lewontin, R.C.1
  • 20
    • 42149115111 scopus 로고    scopus 로고
    • Efficient approximation of P-value of the maximum of correlated tests, with applications to genome-wide association studies
    • LI, Q., ZHENG, G., LI, Z. and YU, K. (2008a). Efficient approximation of P-value of the maximum of correlated tests, with applications to genome-wide association studies. Ann. Hum. Genet. 72 397-406.
    • (2008) Ann. Hum. Genet. , vol.72 , pp. 397-406
    • Li, Q.1    Zheng, G.2    Li, Z.3    Yu, K.4
  • 21
    • 45049084571 scopus 로고    scopus 로고
    • MAX-rank: A simple and robust genome-wide scan for case-control association studies
    • LI, Q., YU, K., LI, Z. and ZHENG, G. (2008b). MAX-rank: A simple and robust genome-wide scan for case-control association studies. Hum. Genet. 123 617-623.
    • (2008) Hum. Genet. , vol.123 , pp. 617-623
    • Li, Q.1    Yu, K.2    Li, Z.3    Zheng, G.4
  • 22
    • 16844366786 scopus 로고    scopus 로고
    • Genome-wide strategies for detecting multiple loci that influence complex diseases
    • MARCHINI, J., DONNELLY, P. and CARDON, L. R. (2005). Genome-wide strategies for detecting multiple loci that influence complex diseases. Nat. Genet. 37 413-417.
    • (2005) Nat. Genet. , vol.37 , pp. 413-417
    • Marchini, J.1    Donnelly, P.2    Cardon, L.R.3
  • 23
    • 0032231375 scopus 로고    scopus 로고
    • Detecting marker-disease association by testing for Hardy-Weinberg disequilibrium at a marker locus
    • NIELSEN, D.M., EHM, M.G. and WEIR, B. S. (1998). Detecting marker-disease association by testing for Hardy-Weinberg disequilibrium at a marker locus. Am.J.Hum.Genet.63 1531-1540.
    • (1998) Am. J. Hum. Genet. , vol.63 , pp. 1531-1540
    • Nielsen, D.M.1    Ehm, M.G.2    Weir, B.S.3
  • 24
    • 0033394503 scopus 로고    scopus 로고
    • A classical setting for associations between markers and loci affecting quantitative traits
    • NIELSEN, D.M. and WEIR, B. S. (1999). A classical setting for associations between markers and loci affecting quantitative traits. Genet. Res. 74 271-277.
    • (1999) Genet. Res. , vol.74 , pp. 271-277
    • Nielsen, D.M.1    Weir, B.S.2
  • 25
    • 77955151338 scopus 로고    scopus 로고
    • On combining data from genome-wide association studies to discover disease-associated SNPs
    • PFEIFFER, R.M., GAIL, M.H. and PEE, D. (2009). On combining data from genome-wide association studies to discover disease-associated SNPs. Statist. Sci. 24 547-560.
    • (2009) Statist. Sci. , vol.24 , pp. 547-560
    • Pfeiffer, R.M.1    Gail, M.H.2    Pee, D.3
  • 26
    • 77955169164 scopus 로고    scopus 로고
    • Genome-wide significance levels and weighted hypothesis testing
    • ROEDER, K. and WASSERMAN, L. (2009). Genome-wide significance levels and weighted hypothesis testing. Statist. Sci. 24 398-413.
    • (2009) Statist. Sci. , vol.24 , pp. 398-413
    • Roeder, K.1    Wasserman, L.2
  • 27
    • 0031466983 scopus 로고    scopus 로고
    • From genotypes to genes: Doubling the sample size
    • MR1614374
    • SASIENI, P. D. (1997). From genotypes to genes: Doubling the sample size. Biometrics 53 1253-1261. MR1614374
    • (1997) Biometrics , vol.53 , pp. 1253-1261
    • Sasieni, P.D.1
  • 30
    • 31344435414 scopus 로고    scopus 로고
    • A powerful method of combining measures of association and Hardy-Weinberg disequilibrium for fine-mapping in case-control studies
    • MR2222077
    • SONG, K. and ELSTON, R. C. (2006). A powerful method of combining measures of association and Hardy-Weinberg disequilibrium for fine-mapping in case-control studies. Stat. Med. 25 105-126. MR2222077
    • (2006) Stat. Med. , vol.25 , pp. 105-126
    • Song, K.1    Elston, R.C.2
  • 32
    • 0000645573 scopus 로고
    • Which part of the sample contains the information? Proc
    • MR0172387
    • TUKEY, J. W. (1965). Which part of the sample contains the information? Proc. Natl. Acad. Sci. USA 53 127-134. MR0172387
    • (1965) Natl. Acad. Sci. USA , vol.53 , pp. 127-134
    • Tukey, J.W.1
  • 34
    • 27244436454 scopus 로고    scopus 로고
    • A constrained-likelihood approach to marker-trait association studies
    • WANG, K. and SHEFFIELD, V. C. (2005). A constrained-likelihood approach to marker-trait association studies. Am. J. Hum. Genet. 77 768-780.
    • (2005) Am. J. Hum. Genet. , vol.77 , pp. 768-780
    • Wang, K.1    Sheffield, V.C.2
  • 36
    • 18944370235 scopus 로고    scopus 로고
    • Rational inferences about departure from Hardy-Weinberg equilibrium
    • WITTKE-THOMPSON, J.K., PLUZHNIKOV, A. and COX, N.J. (2005). Rational inferences about departure from Hardy-Weinberg equilibrium. Am.J.Hum.Genet.76 967-986.
    • (2005) Am. J. Hum. Genet. , vol.76 , pp. 967-986
    • Wittke-Thompson, J.K.1    Pluzhnikov, A.2    Cox, N.J.3
  • 37
    • 84969213492 scopus 로고    scopus 로고
    • Genome-wide association study of 14,000 cases of seven common diseases and 3000 shared controls
    • The Wellcome Trust Case Control Consortium (WTCCC)
    • THE WELLCOME TRUST CASE CONTROL CONSORTIUM (WTCCC) (2007). Genome-wide association study of 14,000 cases of seven common diseases and 3,000 shared controls. Nature 447 661-678.
    • (2007) Nature , vol.447 , pp. 661-678
  • 38
    • 63449109398 scopus 로고    scopus 로고
    • An optimal dose-effect mode trend test for SNP genotype tables
    • YAMADA, R. and OKADA, Y. (2009). An optimal dose-effect mode trend test for SNP genotype tables. Genet. Epidemiol. 33 114-127.
    • (2009) Genet. Epidemiol. , vol.33 , pp. 114-127
    • Yamada, R.1    Okada, Y.2
  • 39
    • 77953172073 scopus 로고    scopus 로고
    • Simple algorithms to calculate asymptotic null distributions for robust tests in case-control genetic association studies in R
    • ZANG, Y., FUNG, W.K. and ZHENG, G. (2010). Simple algorithms to calculate asymptotic null distributions for robust tests in case-control genetic association studies in R. J. Stat. Software 33 1-24.
    • (2010) J. Stat. Software , vol.33 , pp. 1-24
    • Zang, Y.1    Fung, W.K.2    Zheng, G.3
  • 40
    • 0006462953 scopus 로고    scopus 로고
    • Hardy-Weinberg disequilibrium (HWD) fine mapping for case-control samples
    • Suppl
    • ZAYKIN, D.V. and NIELSEN, D. M. (2000). Hardy-Weinberg disequilibrium (HWD) fine mapping for case-control samples. Am. J. Hum. Genet. 67 1238 Suppl.
    • (2000) Am. J. Hum. Genet. , vol.67 , pp. 1238
    • Zaykin, D.V.1    Nielsen, D.M.2
  • 41
    • 31544447999 scopus 로고    scopus 로고
    • Ranks of genuine associations in whole-genome scans
    • ZAYKIN, D.V. and ZHIVOTOVSKY, L. A. (2005). Ranks of genuine associations in whole-genome scans. Genetics 171 813-823.
    • (2005) Genetics , vol.171 , pp. 813-823
    • Zaykin, D.V.1    Zhivotovsky, L.A.2
  • 42
    • 45849116818 scopus 로고    scopus 로고
    • Genetic model selection in two-phase analysis for case-control association studies
    • ZHENG, G. and NG, H. K. T. (2008). Genetic model selection in two-phase analysis for case-control association studies. Biostatistics 9 391-399.
    • (2008) Biostatistics , vol.9 , pp. 391-399
    • Zheng, G.1    Ng, H.K.T.2
  • 43
    • 60549107504 scopus 로고    scopus 로고
    • Pearson's test, trend tests and MAX are all trend tests with different types of scores
    • ZHENG, G., JOO, J. and YANG, Y. (2009). Pearson's test, trend tests and MAX are all trend tests with different types of scores. Ann. Hum. Genet. 73 133-140.
    • (2009) Ann. Hum. Genet. , vol.73 , pp. 133-140
    • Zheng, G.1    Joo, J.2    Yang, Y.3
  • 44
    • 33947428419 scopus 로고    scopus 로고
    • Adaptive two-stage analysis of genetic association in case-control designs
    • ZHENG, G., SONG, K. and ELSTON, R. C. (2007). Adaptive two-stage analysis of genetic association in case-control designs. Hum. Hered. 63 175-186.
    • (2007) Hum. Hered. , vol.63 , pp. 175-186
    • Zheng, G.1    Song, K.2    Elston, R.C.3
  • 45
    • 58149292807 scopus 로고    scopus 로고
    • Comparison of two-phase analyses for case-control genetic association studies
    • ZHENG, G., MEYER, M., LI, W. and YANG, Y. (2008). Comparison of two-phase analyses for case-control genetic association studies. Stat. Med. 27 5054-5075.
    • (2008) Stat. Med. , vol.27 , pp. 5054-5075
    • Zheng, G.1    Meyer, M.2    Li, W.3    Yang, Y.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.